{"cross_mech":[{"cited_uniprot_accession":"","family_mentioned_in_record":false,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF04285","protein_label":"UPF0229 protein YeaH","reviewed":true,"short_name":"DUF444","source_category":"function/protein_family/ncbifam","source_mech":"ProteinTraitsMech","source_path":"data/traits/function/protein_family/ncbifam/hypothetical-protein-nf003707.yaml","source_record_id":"NCBIfam:NF003707","source_record_label":"hypothetical protein","source_section":"canonical_examples","taxon_id":"NCBITaxon:83333","taxon_label":"Escherichia coli (strain K12)","uniprot_accession":"P76235","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":false,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF04285","protein_label":"UPF0229 protein YeaH","reviewed":true,"short_name":"DUF444","source_category":"function/protein_family/ncbifam","source_mech":"ProteinTraitsMech","source_path":"data/traits/function/protein_family/ncbifam/hypothetical-protein-nf003708.yaml","source_record_id":"NCBIfam:NF003708","source_record_label":"hypothetical protein","source_section":"canonical_examples","taxon_id":"NCBITaxon:83333","taxon_label":"Escherichia coli (strain K12)","uniprot_accession":"P76235","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":false,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF04285","protein_label":"Stress response UPF0229 protein YhbH","reviewed":true,"short_name":"DUF444","source_category":"function/protein_family/ncbifam","source_mech":"ProteinTraitsMech","source_path":"data/traits/function/protein_family/ncbifam/sporulation-protein-yhbh-tigr02877.yaml","source_record_id":"NCBIfam:TIGR02877","source_record_label":"sporulation protein YhbH","source_section":"canonical_examples","taxon_id":"NCBITaxon:224308","taxon_label":"Bacillus subtilis (strain 168)","uniprot_accession":"P45742","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":true,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF04285","protein_label":"UPF0229 protein YeaH","reviewed":true,"short_name":"DUF444","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf444-pf04285.yaml","source_record_id":"Pfam:PF04285","source_record_label":"Protein of unknown function (DUF444)","source_section":"canonical_examples","taxon_id":"NCBITaxon:405955","taxon_label":"Escherichia coli O1:K1 / APEC","uniprot_accession":"A1ABW3","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":true,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF04285","protein_label":"Stress response UPF0229 protein YhbH","reviewed":true,"short_name":"DUF444","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf444-pf04285.yaml","source_record_id":"Pfam:PF04285","source_record_label":"Protein of unknown function (DUF444)","source_section":"canonical_examples","taxon_id":"NCBITaxon:224308","taxon_label":"Bacillus subtilis (strain 168)","uniprot_accession":"P45742","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":true,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF04285","protein_label":"UPF0229 protein YeaH","reviewed":true,"short_name":"DUF444","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf444-pf04285.yaml","source_record_id":"Pfam:PF04285","source_record_label":"Protein of unknown function (DUF444)","source_section":"canonical_examples","taxon_id":"NCBITaxon:83333","taxon_label":"Escherichia coli (strain K12)","uniprot_accession":"P76235","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":null,"link_basis":["trait_identifier"],"pfam_id":"PF04285","protein_label":"","reviewed":null,"short_name":"DUF444","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf444-pf04285.yaml","source_record_id":"Pfam:PF04285","source_record_label":"Protein of unknown function (DUF444)","source_section":"trait_identifier","taxon_id":"","taxon_label":"","uniprot_accession":"","unknown_status":"UNKNOWN_CANDIDATE"}],"family":{"alphafold_models":3617,"candidate_reasons":["short_name_matches_duf","name_says_unknown_function","description_says_unknown_function"],"characterization_status":"","context_evidence_count":null,"cross_mech":{"example_proteins":3,"protein_traits_record":true,"records_by_mech":{"ProteinTraitsMech":4},"scanned":true},"curation_status":"SEEDED","demotion_reasons":[],"description":"Bacterial protein of unknown function. One family member ([swissprot:Q97LI1]) is predicted to contain a von Willebrand factor (vWF) type A domain (Smart:VWA). Another family member YeaH is predicted to be part of a conserved signalling pathway with the kinase YeaG and the SpoVR protein YcgB. The pathway may be involved in nitrogen metabolism (see Supplementary note 5 in [[cite:PUB00093610]].)","domain_architectures":7,"interpro_id":"IPR006698","known_evidence_count":null,"matches":7057,"name":"Protein of unknown function (DUF444)","partial_evidence_count":null,"pfam_id":"PF04285","proteins":5552,"proteomes":5312,"short_name":"DUF444","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF04285","structures":0,"taxa":7469,"unknown_status":"UNKNOWN_CANDIDATE"},"inputs":{"cross_mech":"cross-mech-duf-examples-2026-10-10","members":"pfam-uniprot-uniref90-2026-10-07","protein_examples":"duf-protein-examples-2026-10-13","worklist":"interpro-pfam-duf-2026-10-10"},"members":[],"metadata":{"curation_status":"SEEDED","local_source":"source/data/families/PF04285.yaml","record":{"characterization_status":"UNSCORED","counters":{"alphafold_models":3617,"domain_architectures":7,"matches":7057,"proteins":5552,"proteomes":5312,"structures":0,"taxa":7469},"curation_status":"SEEDED","description":"Bacterial protein of unknown function. One family member ([swissprot:Q97LI1]) is predicted to contain a von Willebrand factor (vWF) type A domain (Smart:VWA). Another family member YeaH is predicted to be part of a conserved signalling pathway with the kinase YeaG and the SpoVR protein YcgB. The pathway may be involved in nitrogen metabolism (see Supplementary note 5 in [[cite:PUB00093610]].)","id":"Pfam:PF04285","interpro_id":"InterPro:IPR006698","name":"Protein of unknown function (DUF444)","pfam_id":"PF04285","provenance":{"generated_at":"2026-10-10T07:44:21.614711Z","path":"data/worklists/interpro-pfam-duf-2026-10-10.json","sha256":"17fb625876c9326ed284263a47bcd84e0d7844a31c040dc06cd2260c36f1c383","snapshot_id":"interpro-pfam-duf-2026-10-10","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/"},"seed_status":"UNKNOWN_CANDIDATE","short_name":"DUF444","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF04285"},"source":{"commit":"c8155abfcf881ad8662936343deb81e604e3a194","path":"data/families/PF04285.yaml","repository":"https://github.com/CultureBotAI/DUFMech","sha256":"75d403fb04ce0c1b7f4eb6f21aca020f945596d8ad17e0c651577457fa3ea1b9"}},"protein_examples":{"candidate_count":3,"discovery_scanned":true,"example_count":3,"examples":[{"evidence_scope":"FAMILY_MEMBERSHIP_NOT_FUNCTION","organism":"Escherichia coli O1:K1 / APEC","origins":[{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification","ptm_own_pfam_record_example"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/family/pfam/duf444-pf04285.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF04285","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/family/pfam/duf444-pf04285.yaml"}],"pfam_ids":["PF04285"],"protein_name":"UPF0229 protein YeaH","registry_status":"NOT_IN_REGISTRY","reviewed":true,"sequence":"MTWFIDRRLNGKNKSMVNRQRFLRRYKAQIKQSISEAINKRSVTDVDSGESVSIPTEDISEPMFHQGRGGLRHRVHPGNDHFVQNDRIERPQGGGGGSGSGQGQASQDGEGQDEFVFQISKDEYLDLLFEDLALPNLKQNQQRQLTEYKTHRAGYTANGVPANISVVRSLQNSLARRTAMTAGKRRELHALEENLAIISNSEPAQLLEEERLRKEIAELRAKIERVPFIDTFDLRYKNYEKRPDPSSQAVMFCLMDVSGSMDQSTKDMAKRFYILLYLFLSRTYKNVEVVYIRHHTQAKEVDEHEFFYSQETGGTIVSSALKLMDEVVKERYNPAQWNIYAAQASDGDNWADDSPLCHEILAKKILPVVRYYSYIEITRRAHQTLWREYEHLQSTFDNFAMQHIRDQDDIYPVFRELFHKQNATAKD","sequence_length":427,"sequence_origin":"UNIPROT_FETCH","sequence_sha256":"8cbf39ad658b4077983546178c4080b7edd38bd6719da7aa6e83dc136ca483ab","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/A1ABW3.json","taxon_id":"405955","uniprot_accession":"A1ABW3","uniprot_release":"2026_03"},{"evidence_scope":"FAMILY_MEMBERSHIP_NOT_FUNCTION","organism":"Bacillus subtilis (strain 168)","origins":[{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/sporulation-protein-yhbh-tigr02877.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:TIGR02877","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/sporulation-protein-yhbh-tigr02877.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification","ptm_own_pfam_record_example"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/family/pfam/duf444-pf04285.yaml","qualification_status":"QUALIFIED","record_id":"Pfam:PF04285","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/family/pfam/duf444-pf04285.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["ptm_registry_exact_uniprot_pfam_xref"],"mech":"ProteinTraitsMech","path":"data/grounding/protein_registry.jsonl","qualification_status":"NOT_ASSESSED_FOR_THIS_FAMILY","record_id":"UniProtKB:P45742","section":"protein_registry","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"}],"pfam_ids":["PF04285"],"protein_name":"Stress response UPF0229 protein YhbH","registry_source":{"commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","path":"data/grounding/protein_registry.jsonl","repository":"https://github.com/CultureBotAI/proteintraitsmech","sequence_sha256":"af0349b0ef2cfdad3bafd7356cc465446e33476331865fe7cf484acb5550cca3","sequence_version":2,"sha256":"1be0cf02b76b03a8fe9b80bcead9cd4a419157116eb8da038f266bcc33015eb9","uniprot_release":"2026_03","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"},"registry_status":"EXACT_SEQUENCE_VERSION_MATCH","reviewed":true,"sequence":"MSQNDSGHFLISEENWSLHRKGFDDQQRHQKKVQEAIKNNLPDLVTEESIIMSNGKDVVKIPIRSLDEYKIRYNYDKNKHVGQGDGESQVGDVVARDGSDKKQGPGKGQGAGDQAGEDYYEAEVSLMDLEEALFKELELPNLQQKERDNIIHTDIEFNDIRKTGLTGNIDKKRTMMSAFKRNAMSGKPSFYPIYPEDLKYKTWNDITKPESKAVVLAMMDTSGSMGVWEKYMARSFFFWMTRFLRTKYETVEIEFIAHHTEARVVSEEDFFSKGESGGTICSSVYRKSLELIDEKYNPARYNIYPFHFSDGDNLTSDNARCVKLVNDIMKKANLFCYGEVNQYNRHSTLMSAYKNVKDEKFKYYILKQKSDVFQALKNFFRNEESGVSHQFS","sequence_length":392,"sequence_origin":"PTM_REGISTRY_MIRROR","sequence_sha256":"af0349b0ef2cfdad3bafd7356cc465446e33476331865fe7cf484acb5550cca3","sequence_version":2,"source_url":"https://rest.uniprot.org/uniprotkb/P45742.json","taxon_id":"224308","uniprot_accession":"P45742","uniprot_release":"2026_03"},{"evidence_scope":"FAMILY_MEMBERSHIP_NOT_FUNCTION","organism":"Escherichia coli (strain K12)","origins":[{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/hypothetical-protein-nf003707.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:NF003707","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/hypothetical-protein-nf003707.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/hypothetical-protein-nf003708.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:NF003708","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/hypothetical-protein-nf003708.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification","ptm_own_pfam_record_example"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/family/pfam/duf444-pf04285.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF04285","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/family/pfam/duf444-pf04285.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["ptm_registry_exact_uniprot_pfam_xref"],"mech":"ProteinTraitsMech","path":"data/grounding/protein_registry.jsonl","qualification_status":"NOT_ASSESSED_FOR_THIS_FAMILY","record_id":"UniProtKB:P76235","section":"protein_registry","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"}],"pfam_ids":["PF04285"],"protein_name":"UPF0229 protein YeaH","registry_source":{"commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","path":"data/grounding/protein_registry.jsonl","repository":"https://github.com/CultureBotAI/proteintraitsmech","sequence_sha256":"8d49e9f6a15b8f2cd98a06059016d7d804c8193ba9a02b89388807b0ae961a46","sequence_version":1,"sha256":"1be0cf02b76b03a8fe9b80bcead9cd4a419157116eb8da038f266bcc33015eb9","uniprot_release":"2026_03","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"},"registry_status":"EXACT_SEQUENCE_VERSION_MATCH","reviewed":true,"sequence":"MTWFIDRRLNGKNKSMVNRQRFLRRYKAQIKQSISEAINKRSVTDVDSGESVSIPTEDISEPMFHQGRGGLRHRVHPGNDHFVQNDRIERPQGGGGGSGSGQGQASQDGEGQDEFVFQISKDEYLDLLFEDLALPNLKQNQQRQLTEYKTHRAGYTANGVPANISVVRSLQNSLARRTAMTAGKRRELHALEENLAIISNSEPAQLLEEERLRKEIAELRAKIERVPFIDTFDLRYKNYEKRPDPSSQAVMFCLMDVSGSMDQSTKDMAKRFYILLYLFLSRTYKNVEVVYIRHHTQAKEVDEHEFFYSQETGGTIVSSALKLMDEVVKERYNPAQWNIYAAQASDGDNWADDSPLCHEILAKKLLPVVRYYSYIEITRRAHQTLWREYEHLQSTFDNFAMQHIRDQDDIYPVFRELFHKQNATAKG","sequence_length":427,"sequence_origin":"PTM_REGISTRY_MIRROR","sequence_sha256":"8d49e9f6a15b8f2cd98a06059016d7d804c8193ba9a02b89388807b0ae961a46","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/P76235.json","taxon_id":"83333","uniprot_accession":"P76235","uniprot_release":"2026_03"}],"pfam_id":"PF04285","short_name":"DUF444","status":"HAS_SEQUENCE_EXAMPLE","unresolved":[]}}